Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: VEPZ01008977.1 Hibiscus syriacus cultivar Beakdansim tig00112334_pilon, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 220012
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33


File 2 of 2

Found at i:218408 original size:11 final size:11

Alignment explanation


    Indices: 218380--218443  Score: 60
    Period size: 11  Copynumber: 5.9  Consensus size: 11

     218370 TGGTTATAAA

                       
     218380 TATTATATTA-
          1 TATTATATTAC

              *        
     218390 TAAT-TATTAC
          1 TATTATATTAC

                      *
     218400 TATTATATTAT
          1 TATTATATTAC

                      *
     218411 TATTATATTAT
          1 TATTATATTAC

                     *  
     218422 TATTATTATAAC
          1 TATTA-TATTAC

            *         
     218434 AATTATATTA
          1 TATTATATTA

     218444 TAATACTTAT


Statistics
Matches: 44,  Mismatches: 7, Indels: 5
        0.79            0.12        0.09

Matches are distributed among these distances:
   9    5  0.11
  10    6  0.14
  11   25  0.57
  12    8  0.18

ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56


Consensus pattern (11 bp):   
TATTATATTAC

Found at i:218411 original size:3 final size:3

Alignment explanation


    Indices: 218380--218430  Score: 63
    Period size: 3  Copynumber: 18.0  Consensus size: 3

     218370 TGGTTATAAA

                            *         *                                    
     218380 TAT TA- TAT TAT AAT TAT TAC TAT TA- TAT TAT TAT TA- TAT TAT TAT
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT

                   
     218425 TAT TAT
          1 TAT TAT

     218431 AACAATTATA


Statistics
Matches: 41,  Mismatches: 4, Indels: 6
        0.80            0.08        0.12

Matches are distributed among these distances:
   2    6  0.15
   3   35  0.85

ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61


Consensus pattern (3 bp):   
TAT

Found at i:218414 original size:17 final size:17

Alignment explanation


    Indices: 218380--218464  Score: 81
    Period size: 17  Copynumber: 5.1  Consensus size: 17

     218370 TGGTTATAAA

                             
     218380 TATTA-TATTATA--AT
          1 TATTACTATTATATTAT

                             
     218394 TATTACTATTATATTAT
          1 TATTACTATTATATTAT

                              
     218411 TATTA-TATTATTATTAT
          1 TATTACTATTA-TATTAT

               *  *          
     218428 TATAACAATTATATTA-
          1 TATTACTATTATATTAT

              *                
     218444 TAATACTTATTAGTATTAT
          1 TATTAC-TATTA-TATTAT

              
     218463 TA
          1 TA

     218465 ATCATGTATG


Statistics
Matches: 58,  Mismatches: 5, Indels: 11
        0.78            0.07        0.15

Matches are distributed among these distances:
  14    5  0.09
  15    7  0.12
  16    9  0.16
  17   26  0.45
  18    9  0.16
  19    2  0.03

ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55


Consensus pattern (17 bp):   
TATTACTATTATATTAT


Done.